Obvious inmates:
Darkrai
Zekrom

More may be voted upon at a later date

Giratina?

Groudon? He's a browny-red

Groudon is red like Darmanitan. Heatmor is more on the line but still red

All dem inmates are here:

http://bulbapedia.bulbagarden.net/wi...by_color#Black

http://bulbapedia.bulbagarden.net/wi...by_color#Brown

Lesser Smaug - Staraptor, Infernape, and Trapinch are definitely not brown to name a few, and I would hardly call Munchlax or Spoink black. They also say that Lampent is white so I really don't think those lists should be trusted